|
Status |
Public on Aug 05, 2016 |
Title |
rhh174_ChIP9_701_503_entst_26082015 |
Sample type |
SRA |
|
|
Source name |
cell line
|
Organism |
Homo sapiens |
Characteristics |
cell line: HACAT treatment: Entinostat
|
Extracted molecule |
genomic DNA |
Extraction protocol |
See methods section in the associated manuscript See methods section in the associated manuscript
|
|
|
Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
rhh_ChIP_entst_26082015 processed data file: rhh_ChIP_entst_26082015_peaks.narrowPeak.gz
|
Data processing |
Library strategy: BG4-ChIP bcl files were converted to fastq using bcl2fastq v2.15.0.4 with default options. See https://github.com/sblab-bioinformatics/dna-secondary-struct-chrom-lands/blob/master/Methods.md Genome_build: hg19 Supplementary_files_format_and_content: For narrowPeak format see MACS2 documentation at https://github.com/taoliu/MACS/. The text format files are differential binding and differential expression tables with columns: logFC: the log-abundance ratio, i.e. fold change, for each tag in the two groups being compared, logCPM: the log-average concentration/abundance for each tag in the two groups being compared, PValue exact p-value for differential expression using the NB model, FDR the p-value adjusted for multiple testing
|
|
|
Submission date |
Jan 08, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Dario Beraldi |
E-mail(s) |
dario.beraldi@cruk.cam.ac.uk
|
Organization name |
Cambridge Research Institute
|
Street address |
Robinson Way
|
City |
Cambridge |
ZIP/Postal code |
CB2 0RE |
Country |
United Kingdom |
|
|
Platform ID |
GPL18573 |
Series (1) |
GSE76688 |
G-quadruplex structures mark human regulatory chromatin |
|
Relations |
BioSample |
SAMN04393191 |
SRA |
SRX1525759 |